{"id": "datst.sg1fq-8rc76", "created": "2025-04-16T08:11:10.408664+00:00", "updated": "2026-06-23T10:58:41.370639+00:00", "links": {"self": "https://datarepo.eosc.cz/api/datasets/datst.sg1fq-8rc76", "self_html": "https://datarepo.eosc.cz/datasets/records/datst.sg1fq-8rc76", "doi": "https://doi.org/10.48700/datst.sg1fq-8rc76", "self_doi": "https://doi.org/10.48700/datst.sg1fq-8rc76", "self_doi_html": "https://datarepo.eosc.cz/doi/10.48700/datst.sg1fq-8rc76", "reserve_doi": "https://datarepo.eosc.cz/api/records/datst.sg1fq-8rc76/draft/pids/doi", "parent": "https://datarepo.eosc.cz/api/datasets/re6jb-9rn59", "parent_html": "https://datarepo.eosc.cz/records/re6jb-9rn59", "parent_doi": "https://doi.org/10.48700/re6jb-9rn59", "parent_doi_html": "https://datarepo.eosc.cz/doi/10.48700/re6jb-9rn59", "self_iiif_manifest": "https://datarepo.eosc.cz/api/iiif/record:datst.sg1fq-8rc76/manifest", "self_iiif_sequence": "https://datarepo.eosc.cz/api/iiif/record:datst.sg1fq-8rc76/sequence/default", "files": "https://datarepo.eosc.cz/api/datasets/datst.sg1fq-8rc76/files", "media_files": "https://datarepo.eosc.cz/api/datasets/datst.sg1fq-8rc76/media-files", "archive": "https://datarepo.eosc.cz/api/datasets/datst.sg1fq-8rc76/files-archive", "archive_media": "https://datarepo.eosc.cz/api/datasets/datst.sg1fq-8rc76/media-files-archive", "latest": "https://datarepo.eosc.cz/api/datasets/datst.sg1fq-8rc76/versions/latest", "latest_html": "https://datarepo.eosc.cz/datasets/records/datst.sg1fq-8rc76/latest", "versions": "https://datarepo.eosc.cz/api/datasets/datst.sg1fq-8rc76/versions", "record": "https://datarepo.eosc.cz/api/datasets/datst.sg1fq-8rc76", "access_links": "https://datarepo.eosc.cz/api/records/datst.sg1fq-8rc76/access/links", "access_grants": "https://datarepo.eosc.cz/api/records/datst.sg1fq-8rc76/access/grants", "access_users": "https://datarepo.eosc.cz/api/records/datst.sg1fq-8rc76/access/users", "access_groups": "https://datarepo.eosc.cz/api/records/datst.sg1fq-8rc76/access/groups", "access_request": "https://datarepo.eosc.cz/api/records/datst.sg1fq-8rc76/access/request", "access": "https://datarepo.eosc.cz/api/records/datst.sg1fq-8rc76/access", "communities": "https://datarepo.eosc.cz/api/records/datst.sg1fq-8rc76/communities", "communities-suggestions": "https://datarepo.eosc.cz/api/records/datst.sg1fq-8rc76/communities-suggestions", "request_deletion": "https://datarepo.eosc.cz/api/records/datst.sg1fq-8rc76/request-deletion", "file_modification": "https://datarepo.eosc.cz/api/records/datst.sg1fq-8rc76/file-modification", "quota_increase": "https://datarepo.eosc.cz/api/records/datst.sg1fq-8rc76/quota-increase", "requests": "https://datarepo.eosc.cz/api/requests/?topic=record:datst.sg1fq-8rc76", "applicable-requests": "https://datarepo.eosc.cz/api/requests/applicable?topic=record:datst.sg1fq-8rc76"}, "revision_id": 8, "parent": {"id": "re6jb-9rn59", "access": {"owned_by": {"user": "310"}, "settings": {"allow_user_requests": false, "allow_guest_requests": false, "accept_conditions_text": null, "secret_link_expiration": 0}}, "communities": {"ids": ["f1b37af7-2ffd-40e3-9751-6fd8223ef84f"], "default": "f1b37af7-2ffd-40e3-9751-6fd8223ef84f", "entries": [{"id": "f1b37af7-2ffd-40e3-9751-6fd8223ef84f", "created": "2026-06-18T14:48:26.086745+00:00", "updated": "2026-07-27T14:19:58.121709+00:00", "links": {}, "revision_id": 3, "slug": "heyrovsky", "metadata": {"title": "J. Heyrovsky Institute Community"}, "access": {"visibility": "public", "members_visibility": "public", "member_policy": "closed", "record_submission_policy": "open", "review_policy": "closed"}, "custom_fields": {"workflow": "community", "allowed_workflows": ["community"]}, "deletion_status": {"is_deleted": false, "status": "P"}, "children": {"allow": false}}]}, "pids": {"doi": {"identifier": "10.48700/re6jb-9rn59", "provider": "datacite", "client": "datacite"}}, "workflow": "community"}, "versions": {"is_latest": true, "index": 1}, "is_published": true, "is_draft": false, "pids": {"doi": {"identifier": "10.48700/datst.sg1fq-8rc76", "provider": "datacite", "client": "datacite"}, "oai": {"identifier": "oai:datarepo.eosc.cz:datst.sg1fq-8rc76", "provider": "oai"}}, "metadata": {"publication_date": "2025-04-15", "title": "The library of simulated STED-FCS diffusion law plots ", "publisher": "\u00dastav fyzik\u00e1ln\u00ed chemie J. Heyrovsk\u00e9ho AV \u010cR", "additional_descriptions": [{"description": "<span>Formation of functional nanoscopic domains is an inherent property\n of plasma membranes. Stimulated&nbsp;emission depletion combined with \nfluorescence correlation spectroscopy (STED-FCS) has been used \nto&nbsp;identify such domains, however, the information obtained by STED-FCS \nhas been limited to presence of&nbsp;such domains while crucial parameters \nhave not been accessible, such as size, the fraction of \noccupied&nbsp;membrane surface, in-membrane lipid diffusion inside and \noutside the nanodomains as well as&nbsp;their self-diffusion. Here, based on a\n revision of the 'diffusion law', we present an approach to \nretrieve&nbsp;these five parameters from STED-FCS data. We verify that \napproach on ganglioside nanodomains in giant&nbsp;unilamellar vesicles \n(GUVs), validating the Saffman-Delbr\u00fcck assumption for domain diffusion.\n We examined STED-FCS&nbsp;data in both plasma membranes of living PtK2 cells\n and in giant plasma membrane vesicles (GPMVs) and&nbsp;present a \nquantitative framework for molecular diffusion modes in biological \nmembranes.</span>", "type": {"id": "abstract", "title": {"cs": "Abstrakt", "en": "Abstract"}}, "lang": {"id": "eng", "title": {"cs": "angli\u010dtina", "en": "English"}}}, {"description": "<span>The provided macro contains an extensive set of simulated \nmembrane&nbsp;probe diffusion coefficients for different focal spot sizes in \nmembranes&nbsp;containing mobile nanodomains of different characteristics. By inserting \nyour&nbsp;experimentally measured diffusion coefficients for given focal \nspots,&nbsp;the macro calculates the chi-squared parameters characterizing \nthe&nbsp;similarity between the experimentally measured and simulated \nSTED-FCS&nbsp;diffusion law plot. The diffusion coefficient for molecules \noutside of&nbsp;membrane nanodomains, Dout, can be adjusted to more closely \nalign with&nbsp;the sample's conditions, enhancing the precision of the fit. \nIf the&nbsp;table does not yield satisfactory results, or if you wish to \nsimulate&nbsp;the probe diffusion under different conditions a simulation \ncode is&nbsp;included to this macro.</span>", "type": {"id": "methods", "title": {"cs": "Metodologie", "en": "Methods"}}, "lang": {"id": "eng", "title": {"cs": "angli\u010dtina", "en": "English"}}}, {"description": "<span>The provided code enables users to simulate probe diffusion \nin&nbsp;nanoscopically heterogeneous membranes containing mobile \nnanodomains.&nbsp;Simulation input parameters are specified at the beginning \nof the code.&nbsp;The output, which consists of an intensity fluctuation \ntrace, can be&nbsp;saved to a specified location on your computer by defining\n the desired file path. For guidance on saving data and extracting \nparameters necessary for intensity correlation, refer to the section \n\"saving data and extracting parameters for intensity correlation\" \nlocated at the end&nbsp;of the code. The intensity time trace needs to be \nauto-correlated by&nbsp;'standard' software to receive an autocorrelation \nfunction and the&nbsp;auto-correlation function fitted to retrieve the \nmeasured probe&nbsp;diffusion coefficient.</span>", "type": {"id": "technical-info", "title": {"cs": "Technick\u00e1 informace", "en": "Technical Info"}}, "lang": {"id": "eng", "title": {"cs": "angli\u010dtina", "en": "English"}}}], "creators": [{"person_or_org": {"type": "personal", "name": "Svobodov\u00e1, Barbora", "given_name": "Barbora", "family_name": "Svobodov\u00e1", "identifiers": [{"identifier": "0000-0002-1796-7408", "scheme": "orcid"}]}, "affiliations": [{"id": "02sat5y74", "name": "Czech Academy of Sciences, Heyrovsky Institute", "identifiers": [{"identifier": "02sat5y74", "scheme": "ror"}, {"identifier": "grid.425073.7", "scheme": "grid"}, {"identifier": "0000 0004 0633 9822", "scheme": "isni"}]}]}, {"person_or_org": {"type": "personal", "name": "\u0160\u0165astn\u00fd, David", "given_name": "David", "family_name": "\u0160\u0165astn\u00fd", "identifiers": [{"identifier": "0009-0008-8898-3377", "scheme": "orcid"}]}, "affiliations": [{"id": "02sat5y74", "name": "Czech Academy of Sciences, Heyrovsky Institute", "identifiers": [{"identifier": "02sat5y74", "scheme": "ror"}, {"identifier": "grid.425073.7", "scheme": "grid"}, {"identifier": "0000 0004 0633 9822", "scheme": "isni"}]}]}, {"person_or_org": {"type": "personal", "name": "\u0160achl, Radek", "given_name": "Radek", "family_name": "\u0160achl", "identifiers": [{"identifier": "0000-0002-0441-3908", "scheme": "orcid"}]}, "affiliations": [{"id": "02sat5y74", "name": "Czech Academy of Sciences, Heyrovsky Institute", "identifiers": [{"identifier": "02sat5y74", "scheme": "ror"}, {"identifier": "grid.425073.7", "scheme": "grid"}, {"identifier": "0000 0004 0633 9822", "scheme": "isni"}]}]}], "dates": [{"date": "2025-04-15", "type": {"id": "available", "title": {"cs": "Datum zve\u0159ejn\u011bn\u00ed", "en": "Date Available"}}, "description": "The date the resource is made publicly available. May be a range.\nTo indicate the end of an embargo period, use Available."}, {"date": "2022-10-04/2025-03-30", "type": {"id": "created", "title": {"cs": "Datum vytvo\u0159en\u00ed", "en": "Date Created"}}, "description": "The date the resource itself was put together; this could refer to a timeframe in ancient history."}, {"date": "2022-10-04/2025-03-31", "type": {"id": "collected", "title": {"cs": "Datum sb\u011bru", "en": "Date Collected"}}, "description": "The date range."}], "subjects": [{"id": "ford:10610", "subject": "Biophysics", "scheme": "FORD", "props": {"parents": "ford:10600", "classification_code": "10610"}, "identifiers": [{"identifier": "https://vocabs.ccmm.cz/registry/codelist/SubjectCategory/10000/10600/10610", "scheme": "url"}]}, {"subject": "diffusion law plots"}, {"subject": "STED"}, {"subject": "fluorescence correlation spectroscopy"}, {"subject": "nanoscale membrane organization"}, {"subject": "gangliosides"}, {"subject": "single-molecule microscopy"}], "funding": [{"funder": {"id": "01pv73b02", "name": "Grantov\u00e1 agentura \u010cesk\u00e9 republiky"}, "award": {"number": "GX19-26854X"}}, {"funder": {"id": "01pv73b02", "name": "Grantov\u00e1 agentura \u010cesk\u00e9 republiky"}, "award": {"number": "25-15346S"}}, {"funder": {"id": "037n8p820", "name": "Ministerstvo \u0161kolstv\u00ed, ml\u00e1de\u017ee a t\u011blov\u00fdchovy"}, "award": {"number": "EH22_008/0004558", "title": {"en": "Advanced Multiscale Materials for Key Enabling Technologies"}}}], "resource_type": {"id": "dataset", "title": {"cs": "Datov\u00e1 sada", "en": "Dataset"}}, "languages": [{"id": "eng", "title": {"cs": "angli\u010dtina", "en": "English"}}], "rights": [{"id": "cc-by-4.0", "title": {"cs": "Creative Commons Uve\u010fte p\u016fvod 4.0 Mezin\u00e1rodn\u00ed licence", "en": "Creative Commons Attribution 4.0 International"}, "description": {"cs": "Umo\u017e\u0148uje ostatn\u00edm rozmno\u017eovat, roz\u0161i\u0159ovat, vystavovat a sd\u011blovat d\u00edlo a z n\u011bj odvozen\u00e1 d\u00edla pouze p\u0159i uveden\u00ed autora. 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